3CFK

Crystal structure of catalytic elimination antibody 34E4, triclinic crystal form

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1Y0L	PDB ENTRY 1Y0L

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		6.7		33% PEG 2000, 0.2M CDCL2, 0.1M BIS- TRIS-PROPANE, PH 6.7, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K, pH 6.70

Crystal Properties
Matthews coefficient	Solvent content
2.63	53.21

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 81.069	α = 89.89
b = 106.299	β = 90.04
c = 116.109	γ = 89.48

Symmetry
Space Group	P 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	MARMOSAIC 325 mm CCD	FLAT COLLIMATING MIRROR, TOROID FOCUSING MIRROR	2006-03-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL9-2		SSRL	BL9-2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym I (Observed)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	2.6	50	95.3	0.064	11.25	1.6		112380			62.1

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.6	2.66	94.7		0.465	1.5	1.5

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 1Y0L	2.6	41.67	106731	5643	94.5	0.222	0.221	0.244	RANDOM	48.73

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
-0.28	0.27	-0.14	-1.22	-0.2	1.49

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.915
r_dihedral_angle_4_deg	19.367
r_dihedral_angle_3_deg	15.775
r_dihedral_angle_1_deg	6.545
r_angle_refined_deg	1.295
r_angle_other_deg	0.955
r_scangle_it	0.937
r_scbond_it	0.666
r_mcangle_it	0.416
r_symmetry_vdw_other	0.413
r_symmetry_hbond_refined	0.359
r_symmetry_vdw_refined	0.331
r_mcbond_it	0.317
r_metal_ion_refined	0.225
r_nbd_refined	0.206
r_nbd_other	0.202
r_xyhbond_nbd_refined	0.193
r_nbtor_refined	0.181
r_mcbond_other	0.1
r_nbtor_other	0.088
r_xyhbond_nbd_other	0.088
r_chiral_restr	0.073
r_symmetry_metal_ion_refined	0.044
r_bond_refined_d	0.012
r_gen_planes_other	0.006
r_gen_planes_refined	0.005
r_bond_other_d	0.003
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	26768
Nucleic Acid Atoms
Solvent Atoms	277
Heterogen Atoms	73

Software

Software
Software Name	Purpose
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling